Dataset: Molecular identification of genetic variants of Neocalanus flemingeri in the Gulf of Alaska from samples collected from 2015 to 2023

This dataset has not been validatedRelease Date:2025-03-31Data not availableVersion 1 (2025-02-21)Dataset Type:Unknown

Principal Investigator: Petra H. Lenz (University of Hawaiʻi at Mānoa)

Scientist, Student: Lauren N Block (University of Hawaiʻi at Mānoa)

BCO-DMO Data Manager: Amber D. York (Woods Hole Oceanographic Institution)

Project: Collaborative Research: Zooplankton restarts in a high-latitude marine ecosystem: species-specific recruitment and development in early spring (Zooplankton recruitment)

Abstract

The subarctic Pacific is inhabit by three copepod congeners in the genus Neocalanus with an overlapping biogeographic range that includes the open ocean, marginal seas and fjord systems. Two distinct genetic variants of Neocalanus flemingeri have been reported from the western Pacific: the “small form” with an annual life cycle is found throughout the region, while the “large form” population with a 2-year life cycle is centered in the Sea of Okhotsk. Using a molecular approach, this study exami...

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Cite Dataset

The raw sequence data are available through the National Center for Biotechnology Information (NCBI):
RNA-Seq data: BioProjects: PRJNA324453, PRJNA662858, PRJNA496596, PRJNA807352
* Supplemental file "954181_v1_sra-run-table.csv" for SRA accession and BioSample collection information for the four bioprojects.

Related Datasets

IsDerivedFrom
Dataset: https://www.st.nmfs.noaa.gov/copepod/collaboration/metazoogene/atlas/html-src/data__MZGdbALL__o00.html
MetaZooGene (2023) MZGdb Atlas All Marine Fauna + Flora combo (World Oceans). Database-Version: v2023-m07-15. https://www.st.nmfs.noaa.gov/copepod/collaboration/metazoogene/atlas/html-src/data__MZGdbALL__o00.html
IsDerivedFrom
Dataset: http://www.ncbi.nlm.nih.gov/bioproject/PRJNA324453
University of Hawaii at Manoa (2016). Neocalanus flemingeri adult females. NCBI:BioProject: PRJNA324453. Bethesda, MD: National Library of Medicine (US), National Center for Biotechnology Information; Available from: http://www.ncbi.nlm.nih.gov/bioproject/PRJNA324453
IsDerivedFrom
Dataset: http://www.ncbi.nlm.nih.gov/bioproject/PRJNA496596
University of Hawaii at Manoa (2018). Neocalanus flemingeri pre adult (CV). 2018/10. In: NCBI:BioProject: PRJNA496596[Internet]. Bethesda, MD: National Library of Medicine (US), National Center for Biotechnology Information; Available from: http://www.ncbi.nlm.nih.gov/bioproject/PRJNA496596
IsDerivedFrom
Dataset: https://www.ncbi.nlm.nih.gov/bioproject/?term=PRJNA662858
University of Hawaii at Manoa (2020). Neocalanus plumchrus, Neocalanus cristatus, Calanus marshallae, Eucalanus bungii, Metridia pacifica. NCBI:BioProject: PRJNA662858. Bethesda, MD: National Library of Medicine (US), National Center for Biotechnology Information; Available from: http://www.ncbi.nlm.nih.gov/bioproject/PRJNA662858
IsDerivedFrom
Dataset: http://www.ncbi.nlm.nih.gov/bioproject/PRJNA807352
University of Hawaii at Manoa (2022). Neocalanus flemingeri, Response to food availability in pre-adult Neocalanus flemingeri. 2022/02. In: NCBI:BioProject: PRJNA807352 [Internet]. Bethesda, MD: National Library of Medicine (US), National Center for Biotechnology Information; Available from: http://www.ncbi.nlm.nih.gov/bioproject/PRJNA807352

Related Publications

Results
Block, L. N. (2024). Evaluating Species-Specific Naupliar Recruitment During the Winter-to-Spring Transition in the Northern Gulf of Alaska Using Molecular Tools (Master's thesis, University of Hawai'i at Manoa). Available from https://hdl.handle.net/10125/108679
Results
Hartline, D. K., Cieslak, M. C., Castelfranco, A. M., Lieberman, B., Roncalli, V., & Lenz, P. H. (2023). De novo transcriptomes of six calanoid copepods (Crustacea): a resource for the discovery of novel genes. Scientific Data, 10(1). https://doi.org/10.1038/s41597-023-02130-1
Results
Roncalli, V., Cieslak, M. C., Castelfranco, A. M., Hopcroft, R. R., Hartline, D. K., & Lenz, P. H. (2021). Post-diapause transcriptomic restarts: insight from a high-latitude copepod. BMC Genomics, 22(1). https://doi.org/10.1186/s12864-021-07557-7
Results
Roncalli, V., Cieslak, M. C., Germano, M., Hopcroft, R. R., & Lenz, P. H. (2019). Regional heterogeneity impacts gene expression in the subarctic zooplankter Neocalanus flemingeri in the northern Gulf of Alaska. Communications Biology, 2(1). https://doi.org/10.1038/s42003-019-0565-5
Results
Roncalli, V., Sommer, S. A., Cieslak, M. C., Clarke, C., Hopcroft, R. R., & Lenz, P. H. (2018). Physiological characterization of the emergence from diapause: A transcriptomics approach. Scientific Reports, 8(1). doi:10.1038/s41598-018-30873-0

Block, L. N., Lenz, P. H. (2025) Molecular identification of genetic variants of Neocalanus flemingeri in the Gulf of Alaska from samples collected from 2015 to 2023. Biological and Chemical Oceanography Data Management Office (BCO-DMO). (Version 1) Version Date 2025-02-21 [if applicable, indicate subset used]. http://lod.bco-dmo.org/id/dataset/954181 [access date]

Terms of Use

This dataset is licensed under Creative Commons Attribution 4.0.


If you wish to use this dataset, it is highly recommended that you contact the original principal investigators (PI). Should the relevant PI be unavailable, please contact BCO-DMO (info@bco-dmo.org) for additional guidance. For general guidance please see the BCO-DMO Terms of Use document.

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Funded by the U.S. National Science Foundation